PXD001509

PXD001509 is an original dataset announced via ProteomeXchange.

Title	Equine synovial fluid .
Description	The aim of the study was to characterise the protein complement of synovial fluid (SF) in health and osteoarthritis (OA) using liquid chromatography mass spectrometry (LC-MS/MS) following peptide-based depletion of high abundance proteins. SF was used from nine normal and nine OA Thoroughbred horses. Samples were analysed with LC-MS/MS using a NanoAcquity™ LC coupled to a LTQ Orbitrap Velos. In order to enrich the lower-abundance protein fractions protein equalisation was first undertaken using ProteoMiner™. Progenesis-QI™ LC-MS software was used for label-free quantification. In addition immunohistochemistry, western blotting and mRNA expression analysis was undertaken on selected joint tissues.The number of protein identifications was increased by 33% in the Proteominer™ treated SF compared to undepleted SF. A total of 754 proteins were identified in SF. A subset of 10 proteins were identified which were differentially expressed in OA SF. S100-A10, a calcium binding protein was upregulated in OA and validated with western blotting and immunohistochemistry. Several new OA specific peptide fragments (neopeptides) were identified.The protein equalisation method compressed the dynamic range of the synovial proteins identifying the most comprehensive SF proteome to date. A number of proteins were identified for the first time in SF which may be involved in the pathogenesis of OA. We identified a distinct set of proteins and neopeptides that may act as potential biomarkers to distinguish between normal and OA joints.
HostingRepository	PRIDE
AnnounceDate	2024-10-07
AnnouncementXML	Submission_2024-10-07_10:02:01.385.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD001509
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Mandy Peffers
SpeciesList	scientific name: Equus caballus (Horse); NCBI TaxID: 9796;
ModificationList	Oxidation; Carbamidomethyl
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2014-11-18 06:59:32	ID requested
⏵ 1	2024-10-07 10:02:01	announced

10.6019/PXD001509;

curator keyword: Biological

submitter keyword: osteoarthritis, synovial fluid,equine

Robert Beynon
contact affiliation	Centre for Proteomic Research, Institute of Integrative Biology, University of Liverpool, Crown Street, Liverpool, L69 7ZB
contact email	r.beynon@liverpool.ac.uk
lab head
Mandy Peffers
contact affiliation	University of Liverpool
contact email	peffs@liv.ac.uk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD001509
     1. Label: PRIDE project
     2. Name: Equine synovial fluid